NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
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Scaffold Ga0244775_10000434

Scaffold Ga0244775_10000434


Overview

Basic Information
Taxon OID3300024346 Open in IMG/M
Scaffold IDGa0244775_10000434 Open in IMG/M
Source Dataset NameWhole water sample coassembly
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)52080
Total Scaffold Genes83 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)62 (74.70%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Unclassified → Unclassified → Estuarine → Estuarine Microbial Communities From The Columbia River Estuary, To Analyze Effect Of Nutrient Fluxes, A Time Series

Source Dataset Sampling Location
Location NameUSA: Columbia River Estuary
CoordinatesLat. (o)46.234Long. (o)-123.9135Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000354Metagenome / Metatranscriptome1244Y
F019477Metagenome / Metatranscriptome229Y
F044488Metagenome / Metatranscriptome154Y
F099157Metagenome / Metatranscriptome103Y

Sequences

Protein IDFamilyRBSSequence
Ga0244775_1000043425F044488GAGMRYGVSFSRDYKDGTVVIRDFLSEPKGRVLCIIVRDNRYEAEQIAQHICDLLNDNNQTQS
Ga0244775_1000043431F000354GGAGMAKVNYDAFNSFDINDACDYFDCEDQRAWKKIGKFIVADGQEYVDVMENHFDFEDTAEGEYAAFDAGVRYALTKMNAAFEAAGLDLEVKTADLVEAMGFMLVRTDDDPESFVKRALKKPVLHVESWV
Ga0244775_100004347F099157GGAGGMRYYDELFRIEDREGFTVIVDKTWEDIALRDCFDDSCYDIRDMEIKVNRGDLDWFMLRVRASIDGHELGSAHLGGCLYEDAREVLSDGTAEDLIEQAIMEAKDQVYPLLRRLLAINERLENPEIAYYGA
Ga0244775_100004348F019477AGGAGMTGLDFKELRVGRMFHCNGNDYVKQSSRTARMLANGRVFYFRQQDYIHPCAW
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Institute for Fundamental Biomedical Research
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